Locus 5688

Sequence ID 2L_DroMel_CAF1
Location 16,170,099 – 16,170,242
Length 143
Max. P 0.907864
window9011 window9012 window9013

overview

Window 1

Location 16,170,099 – 16,170,202
Length 103
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 86.45
Mean single sequence MFE -25.85
Consensus MFE -22.37
Energy contribution -22.07
Covariance contribution -0.30
Combinations/Pair 1.11
Mean z-score -2.17
Structure conservation index 0.87
SVM decision value 1.06
SVM RNA-class probability 0.907864
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16170099 103 - 22407834
CAUAGAAAAUGGUUAAAACGAGGCCGCA---A-------------UGGGCCUGGGCGCU-AAGCGCUUUUAACUGGUAUAUUUAAUAUGCUUACCCUAUAACUACAAUUGUAAAAUCUAA
..((((....(((((((((.(((((...---.-------------..))))).)((((.-..))))))))))))(((((((...)))))))........................)))). ( -26.00)
>DroVir_CAF1 134143 105 - 1
CAUAGAAAAUGGUUAAAACGAGGCCGAU---UAGA-----------UGGCCUGGGCGCU-UAACGCUUUUAACUGGCAUAUUUUAUAUGCUUACCCUAUAACUACAAUUGUAAAAUCUAA
..((((....(((((((((.((((((..---....-----------)))))).)(((..-...)))))))))))(((((((...)))))))........................)))). ( -25.40)
>DroGri_CAF1 96522 104 - 1
CAUAGAAAAUGGUUAAAAUGAGGCCGGA---A------------UGGGGCCUGGGCGCU-UAACGCUUUUAACUGGCAUAUUUUAUAUGCUUACCCUAUAACUACAAUUGUAAAAUCUAA
..((((....(((((((((.(((((...---.------------...))))).)(((..-...)))))))))))(((((((...)))))))........................)))). ( -23.60)
>DroWil_CAF1 127893 107 - 1
CAUAGAAAAUGGUUAAAACGAGGCCUUACAAA-------------GAGGCCUGGGCGCUUAAUCGCUUUUAACUGGCAUAUUUUGUAUGCUUACCCUAUAACUACAAUUGUAAAAUCUAA
..((((....(((((((((.(((((((.....-------------))))))).)(((......)))))))))))(((((((...)))))))........................)))). ( -27.80)
>DroMoj_CAF1 151649 116 - 1
CAUAGAAAAUGGUUAAAACUAGGCCGAA---UAUAUAUAUAUUUUUUGGCCUGGGCGCU-CAACGCUUUUAACUGGCAUAUUUUAUAUGCUUACCCUAUAACUACAAUUGUAAAAUCUAA
..((((....((((((((((((((((((---.(((....)))..))))))))))(((..-...)))))))))))(((((((...)))))))........................)))). ( -29.70)
>DroPer_CAF1 122506 103 - 1
CAUAGAAAAUGGUUAAAACGAGGCCAGA---G-------------GGGGCCUAGGCGCU-CUGCGCUUUUAACUGGAAUAUUUUGUAUGCUUACCCUAUAACUACAAUUGUAAAAUCUAA
((((.((((((((((((...(((((...---.-------------..))))).(((((.-..)))))))))))).....))))).)))).............(((....)))........ ( -22.60)
>consensus
CAUAGAAAAUGGUUAAAACGAGGCCGAA___A_____________GGGGCCUGGGCGCU_AAACGCUUUUAACUGGCAUAUUUUAUAUGCUUACCCUAUAACUACAAUUGUAAAAUCUAA
..((((....(((((((((.(((((......................))))).)(((......)))))))))))(((((((...)))))))........................)))). (-22.37 = -22.07 +  -0.30)

alignment

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secondary structure

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dotplot

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Window 2

Location 16,170,139 – 16,170,242
Length 103
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 79.37
Mean single sequence MFE -17.00
Consensus MFE -15.09
Energy contribution -15.09
Covariance contribution -0.00
Combinations/Pair 1.06
Mean z-score -1.23
Structure conservation index 0.89
SVM decision value 0.41
SVM RNA-class probability 0.726553
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16170139 103 + 22407834
UAUACCAGUUAAAAGCGCUU-AGCGCCCAGGCCCA----U---UGCGGCCUCGUUUUAACCAUUUUCUAUGUUACCUUAUAUGCAAUUCAAUCGAAAUUGAUCAAAUCAGA
.......(((((((((((..-.))))..(((((..----.---...)))))..)))))))...........................(((((....))))).......... ( -17.40)
>DroVir_CAF1 134183 91 + 1
UAUGCCAGUUAAAAGCGUUA-AGCGCCCAGGCCA--UCUA---AUCGGCCUCGUUUUAACCAUUUUCUAUGUUACCUUAUAUCCAAUUCAAUCGAAA--------------
.......((((((((((...-..)))..(((((.--....---...)))))..))))))).....................................-------------- ( -15.30)
>DroGri_CAF1 96562 90 + 1
UAUGCCAGUUAAAAGCGUUA-AGCGCCCAGGCCCCA---U---UCCGGCCUCAUUUUAACCAUUUUCUAUGUUACCUUAUAUCCAAUUCAAUCAAAA--------------
.......((((((((((...-..)))..(((((...---.---...)))))..))))))).....................................-------------- ( -14.50)
>DroWil_CAF1 127933 95 + 1
UAUGCCAGUUAAAAGCGAUUAAGCGCCCAGGCCUC----UUUGUAAGGCCUCGUUUUAACCAUUUUCUAUGUUACCUUAUAUCCAAUUUAAUCGGCA-------A-----A
..((((.((((((((((......)))..((((((.----......))))))..)))))))(((.....)))......................))))-------.-----. ( -21.20)
>DroAna_CAF1 84319 104 + 1
UAUUCCAGUUAAAAGCGCUU-AGCGCCCAGGCCCAU---C---UCCGGCCUCGUUUUAACCAUUUUCUAUGUUACCUUAUAUCCAAUUCAAUCAAAAUUUGCCCAAUCGGA
...(((.(((((((((((..-.))))..(((((...---.---...)))))..)))))))(((.....))).....................................))) ( -17.60)
>DroPer_CAF1 122546 103 + 1
UAUUCCAGUUAAAAGCGCAG-AGCGCCUAGGCCCC----C---UCUGGCCUCGUUUUAACCAUUUUCUAUGUUACCUUAUAUCCAAUUUAAUCAAAAUCGAGCCAAUUAGA
.......(((((((((((..-.))))..(((((..----.---...)))))..))))))).....................((.((((...((......))...)))).)) ( -16.00)
>consensus
UAUGCCAGUUAAAAGCGCUU_AGCGCCCAGGCCCC____U___UCCGGCCUCGUUUUAACCAUUUUCUAUGUUACCUUAUAUCCAAUUCAAUCAAAA_______A_____A
.......(((((((((((....))))..(((((.............)))))..)))))))................................................... (-15.09 = -15.09 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 3

Location 16,170,139 – 16,170,242
Length 103
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 79.37
Mean single sequence MFE -23.37
Consensus MFE -17.48
Energy contribution -17.34
Covariance contribution -0.14
Combinations/Pair 1.06
Mean z-score -1.13
Structure conservation index 0.75
SVM decision value 0.19
SVM RNA-class probability 0.627204
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16170139 103 - 22407834
UCUGAUUUGAUCAAUUUCGAUUGAAUUGCAUAUAAGGUAACAUAGAAAAUGGUUAAAACGAGGCCGCA---A----UGGGCCUGGGCGCU-AAGCGCUUUUAACUGGUAUA
...((((..(((......)))..)))).......................(((((((((.(((((...---.----..))))).)((((.-..))))))))))))...... ( -27.10)
>DroVir_CAF1 134183 91 - 1
--------------UUUCGAUUGAAUUGGAUAUAAGGUAACAUAGAAAAUGGUUAAAACGAGGCCGAU---UAGA--UGGCCUGGGCGCU-UAACGCUUUUAACUGGCAUA
--------------.((((((...))))))....................(((((((((.((((((..---....--)))))).)(((..-...)))))))))))...... ( -19.00)
>DroGri_CAF1 96562 90 - 1
--------------UUUUGAUUGAAUUGGAUAUAAGGUAACAUAGAAAAUGGUUAAAAUGAGGCCGGA---A---UGGGGCCUGGGCGCU-UAACGCUUUUAACUGGCAUA
--------------....................................(((((((((.(((((...---.---...))))).)(((..-...)))))))))))...... ( -16.50)
>DroWil_CAF1 127933 95 - 1
U-----U-------UGCCGAUUAAAUUGGAUAUAAGGUAACAUAGAAAAUGGUUAAAACGAGGCCUUACAAA----GAGGCCUGGGCGCUUAAUCGCUUUUAACUGGCAUA
.-----.-------(((((.(((((...(((.((((((..(((.....))).......(.(((((((.....----))))))).))).)))))))...))))).))))).. ( -26.80)
>DroAna_CAF1 84319 104 - 1
UCCGAUUGGGCAAAUUUUGAUUGAAUUGGAUAUAAGGUAACAUAGAAAAUGGUUAAAACGAGGCCGGA---G---AUGGGCCUGGGCGCU-AAGCGCUUUUAACUGGAAUA
(((((((.((((.....)).)).)))))))....................(((((((((.(((((...---.---...))))).)((((.-..))))))))))))...... ( -27.30)
>DroPer_CAF1 122546 103 - 1
UCUAAUUGGCUCGAUUUUGAUUAAAUUGGAUAUAAGGUAACAUAGAAAAUGGUUAAAACGAGGCCAGA---G----GGGGCCUAGGCGCU-CUGCGCUUUUAACUGGAAUA
(((((((...(((....)))...)))))))....................(((((((...(((((...---.----..))))).(((((.-..))))))))))))...... ( -23.50)
>consensus
U_____U_______UUUCGAUUGAAUUGGAUAUAAGGUAACAUAGAAAAUGGUUAAAACGAGGCCGGA___A____GGGGCCUGGGCGCU_AAGCGCUUUUAACUGGCAUA
..................................................(((((((((.(((((.............))))).)(((......)))))))))))...... (-17.48 = -17.34 +  -0.14)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:14 2006